Biology II AP Review Mrs. Anne Gill [email protected] Cy-Fair High School Cy-Fair ISD Water Polar~ opposite ends, opposite charges Cohesion~ H+ bonds holding molecules together Adhesion~ H+ bonds holding molecules to another substance Surface tension~ measurement of the difficulty to break or stretch the surface of a liquid Specific heat~ amount of heat absorbed or lost to change temperature by 1oC Heat of vaporization~ quantity of heat required to convert 1g from liquid to gas states Density………. Density Less dense as solid than liquid Due to hydrogen bonding Crystalline lattice keeps molecules at a distance Polymers Covalent monomers Condensation reaction (dehydration reaction): One monomer provides a hydroxyl group while the other provides a hydrogen to form a water molecule Hydrolysis: bonds between monomers are broken by adding water (digestion) Carbohydrates, I Monosaccharides CH2O formula; multiple hydroxyl (-OH) groups and 1 carbonyl (C=O) group: aldehyde (aldoses) sugar ketone sugar cellular respiration; raw material for amino acids and fatty acids Carbohydrates, II Disaccharides glycosidic linkage (covalent bond) between 2 monosaccharides covalent bond by dehydration reaction Sucrose (table sugar) most common disaccharide Lipids No polymers; glycerol and fatty acid Fats, phospholipids, steroids Hydrophobic; H bonds in water exclude fats Carboxyl group = fatty acid Non-polar C-H bonds in fatty acid ‘tails’ Ester linkage: 3 fatty acids to 1 glycerol (dehydration formation) Triacyglycerol (triglyceride) Saturated vs. unsaturated fats; single vs. double bonds Proteins Importance: instrumental in nearly everything organisms do; 50% dry weight of cells; most structurally sophisticated molecules known Monomer: amino acids (there are 20) ~ carboxyl (-COOH) group, amino group (NH2), H atom, variable group (R)…. Variable group characteristics: polar (hydrophilic), nonpolar (hydrophobic), acid or base Three-dimensional shape (conformation) Polypeptides (dehydration reaction): peptide bonds~ covalent bond; carboxyl group to amino group (polar) Primary Structure Conformation: Linear structure Molecular Biology: each type of protein has a unique primary structure of amino acids Ex: lysozyme Amino acid substitution: hemoglobin; sickle-cell anemia Secondary Structure Conformation: coils & folds (hydrogen bonds) Alpha Helix: coiling; keratin Pleated Sheet: parallel; silk Tertiary Structure Conformation: irregular contortions from R group bonding hydrophobic disulfide bridges hydrogen bonds ionic bonds Quaternary Structure Conformation: 2 or more polypeptide chains aggregated into 1 macromolecule collagen (connective tissue) hemoglobin Enzymes Catalytic proteins: change the rate of reactions w/o being consumed Free E of activation (activation E): the E required to break bonds Substrate: enzyme reactant Active site: pocket or groove on enzyme that binds to substrate Induced fit model Membrane traffic Diffusion~ tendency of any molecule to spread out into available space Concentration gradient Passive transport~ diffusion of a substance across a biological membrane Osmosis~ the diffusion of water across a selectively permeable membrane Water balance Osmoregulation~ control of water balance Hypertonic~ higher concentration of solutes Hypotonic~ lower concentration of solutes Isotonic~ equal concentrations of solutes Cells with Walls: Turgid (very firm) Flaccid (limp) Plasmolysis~ plasma membrane pulls away from cell wall D:\ImageLibrary1-17\08MembraneStructureAndFunction\08-11Osmosis.mov Plasmolysis QuickTime™ and a Cinepak decompressor are needed to see this picture. Turgidity QuickTime™ and a Cinepak decompressor are needed to see this picture. Cell Division: Key Roles Somatic (body cells) cells Gametes (reproductive cells): sperm and egg cells Chromosomes: DNA molecules Diploid (2n): 2 sets of chromosomes Haploid (1n): 1 set of chromosomes Chromatin: DNA-protein complex Chromatids: replicated strands of a chromosome Centromere: narrowing “waist” of sister chromatids Mitosis: nuclear division Cytokinesis: cytoplasm division Meiosis: gamete cell division The Cell Cycle Interphase (90% of cycle) • G1 phase~ growth • S phase~ synthesis of DNA • G2 phase~ preparation for cell division Mitotic phase • Mitosis~ nuclear division • Cytokinesis~ cytoplasm division Cellular respiration Glycolysis: cytosol; degrades glucose into pyruvate Kreb’s Cycle: mitochondrial matrix; pyruvate into carbon dioxide Electron Transport Chain and Oxidative Phosphorylation: inner membrane of mitochondrion; electrons passed to oxygen * SHOW VIDEO Photosynthesis Redox process H2O is split, e- (along w/ H+) are transferred to CO2, reducing it to sugar 2 major steps: • light reactions (“photo”) - NADP+ (electron acceptor) to NADPH -Photophosphorylation: ADP ---> ATP • Calvin cycle (“synthesis”) -Carbon fixation: carbon into organics SHOW VIDEO A review of photosynthesis DNA Replication Leading strand: synthesis toward the replication fork (only in a 5’ to 3’ direction from the 3’ to 5’ master strand) Lagging strand: synthesis away from the replication fork (Okazaki fragments); joined by DNA ligase (must wait for 3’ end to open; again in a 5’ to 3’ direction) Initiation: Primer (short RNA sequence~w/primase enzyme), begins the replication process SHOW VIDEOS Figure 16.15 The main proteins of DNA replication and their functions Figure 17.25 A summary of transcription and translation in a eukaryotic cell Figure 10.19 Destinations for Newly Translated Polypeptides in a Eukaryotic Cell (Part 1) Figure 18.5 The lysogenic and lytic reproductive cycles of phage , a temperate phage Bacterial genetics Nucleoid: region in bacterium densely packed with DNA (no membrane) Plasmids: small circles of DNA Reproduction: binary fission (asexual) Operons, I Def: Unit of genetic function consisting of coordinately related clusters of genes with related functions (transcription unit) Repressible (trp operon): tryptophan (a.a.) synthesis promoter: RNA polymerase binding site; begins transcription operator: controls access of RNA polymerase to genes (tryptophan not present) repressor: protein that binds to operator and prevents attachment of RNA polymerase ~ coded from a regulatory gene (tryptophan present ~ acts as a corepressor) transcription is repressed when tryptophan binds to a regulatory protein Operons, II Inducible (lac operon): lactose metabolism lactose not present: repressor active, operon off; no transcription for lactose enzymes lactose present: repressor inactive, operon on; inducer molecule inactivates protein repressor (allolactose) transcription is stimulated when inducer binds to a regulatory protein The Origin of Life Spontaneous generation vs. biogenesis (Pasteur) The 4-stage Origin of life Hypothesis: 1- Abiotic synthesis of organic monomers 2- Polymer formation 3- Origin of Selfreplicating molecules 4- Molecule packaging (“protobionts”) Evolution Evolution: the change over time of the genetic composition of populations Natural selection: populations of organisms can change over the generations if individuals having certain heritable traits leave more offspring than others (differential reproductive success) Evolutionary adaptations: a prevalence of inherited characteristics that enhance organisms’ survival and reproduction November 24, 1859 Descent with Modification, I 5 observations: 1- Exponential fertility 2- Stable population size 3- Limited resources 4- Individuals vary 5- Heritable variation Descent with Modification, II 3 Inferences: 1- Struggle for existence 2- Non-random survival 3- Natural selection (differential success in reproduction) Population genetics Population: a localized group of individuals belonging to the same species Species: a group of populations whose individuals have the potential to interbreed and produce fertile offspring Gene pool: the total aggregate of genes in a population at any one time Population genetics: the study of genetic changes in populations Modern synthesis/neo-Darwinism “Individuals are selected, but populations evolve.” Hardy-Weinberg Theorem Serves as a model for the genetic structure of a nonevolving population (equilibrium) 5 conditions: 1- Very large population size; 2- No migration; 3- No net mutations; 4- Random mating; 5- No natural selection Microevolution Genetic Drift Founder Effect and Bottle Neck Sexual Selection Gene Flow Mutations Natural Selection Macroevolution: the origin of new taxonomic groups Speciation: the origin of new species 1- Anagenesis (phyletic evolution): accumulation of heritable changes 2- Cladogenesis (branching evolution): budding of new species from a parent species that continues to exist (basis of biological diversity) Reproductive Isolation (isolation of gene pools), I Prezygotic barriers: impede mating between species or hinder the fertilization of the ova Habitat (snakes; water/terrestrial) Behavioral (fireflies; mate signaling) Temporal (salmon; seasonal mating) Mechanical (flowers; pollination anatomy) Gametic (frogs; egg coat receptors) Reproductive Isolation, II Postzygotic barriers: fertilization occurs, but the hybrid zygote does not develop into a viable, fertile adult Reduced hybrid viability (frogs; zygotes fail to develop or reach sexual maturity) Reduced hybrid fertility (mule; horse x donkey; cannot backbreed) Hybrid breakdown (cotton; 2nd generation hybrids are sterile) Modes of speciation (based on how gene flow is interrupted) Allopatric: populations segregated by a geographical barrier; can result in adaptive radiation (island species) Sympatric: reproductively isolated subpopulation in the midst of its parent population (change in genome); polyploidy in plants; cichlid fishes Punctuated equilibria Tempo of speciation: gradual vs. divergence in rapid bursts; Niles Eldredge and Stephen Jay Gould (1972); helped explain the non-gradual appearance of species in the fossil record Constructing a Cladogram Sorting homology vs. analogy... Homology: likenesses attributed to common ancestry Analogy: likenesses attributed to similar ecological roles and natural selection Convergent evolution: species from different evolutionary branches that resemble one another due to similar ecological roles A Cladogram Figure 32.4 A traditional view of animal diversity based on body-plan grades Figure 32.6 Body plans of the bilateria Figure 32.7 A comparison of early development in protostomes and deuterostomes Plant Evolution Four groups of Land Plants bryophytes (mosses) pteridophytes (ferns) gymnosperms (pines and conifers) angiosperms (flowering plants) Plants: multicellular, eukaryotic, photosynthetic autotrophs Terrestrial colonization: Vascular tissue The seed The flower Figure 29.1 Some highlights of plant evolution Characteristics that separate plants from algae ancestors Apical meristems: localized regions of cell division Multicellular, dependent embryos (embryophytes) Alternation of generations Walled spores produced in sporangia Multicellular gametangia Seed Plant Reproductive Adaptations Reduction of the gametophyte: shift from haploid to diploid condition; female gametophyte and embryo remain in sporangia (protection against drought and ionizing radiation on land?) Advent of the seed multicellular sporophyte embryo with food supply and protective coat; heterosporous (two types of spores): megaspores--->female gametophyte--->eggs; microspores---> male gametophyte--->sperm Evolution of pollen: develop from microspores which mature into the male gametophytes; resistant and airborne for a terrestrial environment; eliminated water (sporopollenin coats) Angiosperm structure Three basic organs: Roots (root system) fibrous: mat of thin roots taproot: one large, vertical root Stems (shoot system) nodes: leave attachment internodes: stem segments axillary bud: dormant, vegetative potential terminal bud: apex of young shoot apical dominance: inhibits axillary buds Leaves (shoot system) blade petiole Plant Organ Systems Dermal (epidermis): single layer of cells for protection cuticle Vascular (material transport) xylem: water and dissolved minerals roots to shoots tracheids & vessel elements: xylem elongated cells dead at maturity phloem: food from leaves to roots and fruits sieve-tube members: phloem tubes alive at maturity capped by sieve plates; companion cells (nonconducting) connected by plasmodesmata Ground (photosynthesis, storage, support): pith and cortex Plant Growth Life Cycles annuals: 1 year (wildflowers; food crops) biennials: 2 years (beets; carrots) perennials: many years (trees; shrubs) Meristems apical: tips of roots and buds; primary growth lateral: cylinders of dividing cells along length of roots and stems; secondary growth (wood) Summary of primary & secondary growth in a woody a stem PRIMARY MERISTEMS Protoderm Apical meristem of stem PRIMARY TISSUES LATERAL MERISTEM Epidermis Primary phloem Procambium Secondary phloem Vascular cambium Primary xylem Ground meristem Ground Pith & tissue: Cortex SECONDARY TISSUES Secondary xylem Periderm Cork cambium Cork Whole Plant Transport 1- Roots absorb water and dissolved minerals from soil 2- Water and minerals are transported upward from roots to shoots as xylem sap 3- Transpiration, the loss of water from leaves, creates a force that pulls xylem sap upwards 4- Leaves exchange CO2 and O2 through stomata 5- Sugar is produced by photosynthesis in leaves 6- Sugar is transported as phloem sap to roots and other parts of plant 7- Roots exchange gases with air spaces of soil (supports cellular respiration in roots) Figure 36.1 An overview of transport in whole plants (Layer 4) Cellular Transport Water transport Osmosis; hyper-; hypo-; iso- Cell wall creates physical pressure: water potential solutes decrease; pressure increase Water moves from high to low water potential Flaccid (limp, iostonic); Plasmolysis (cell loses water in a hypertonic environment; plasma membrane pulls away); Turgor pressure (influx of water due to osmosis; hypotonic environment) Transport of Xylem Sap Transpiration: loss of water vapor from leaves pulls water from roots (transpirational pull); cohesion and adhesion of water Root pressure: at night (low transpiration), roots cells continue to pump minerals into xylem; this generates pressure, pushing sap upwards; guttation Plant symbiosis, I Rhizobium bacteria (found in root nodules in the legume family) Mutualistic: legume receives fixed N2; bacteria receives carbohydrates & organic materials Plant symbiosis, II Mycorrhizae (fungi); modified roots Mutualistic: fungus receives sugar; plant receives increased root surface area and increased phosphate uptake Two types: ectomycorrhizae ensheaths the root endomycorrhizae (90% of plants) through cell wall but not cell membrane Overview of food processing 1-Ingestion: act of eating 2-Digestion: process of food break down enzymatic hydrolysis intracellular: breakdown within cells (sponges) extracellular: breakdown outside cells (most animals) alimentary canals (digestive tract) 3- Absorption: cells take up small molecules 4- Elimination: removal of undigested material Figure 41.17 Enzymatic digestion in the human digestive system Homeostasis: regulation of internal environment Thermoregulation maintain an internal temperature within a tolerable range Osmoregulation regulating solute and water balance (gain and loss) Excretion nitrogen containing waste Regulation of body temperature Thermoregulation 4 physical processes: Conduction~transfer of heat between molecules of body and environment Convection~transfer of heat as water/air move across body surface Radiation~transfer of heat produced by organisms Evaporation~loss of heat from liquid to gas Sources of body heat: Ectothermic: low metabolic rate, amount of heat generated is too small to have an effect on the organism. Body Temp then determined by environment Endothermic: high metabolic rate generates high body heat Figure 44.21 The human excretory system at four size scales Heredity Heredity: the transmission of traits from one generation to the next Asexual reproduction: clones Sexual reproduction: variation Human life cycle: • 23 pairs of homologous chromosomes (46) • 1 pair of sex and 22 pairs of autosomes • karyotype • gametes are haploid (1N)/ all other cells are diploid (2N) •fertilization results in a zygote Meiosis: cell division to produce haploid gametes Chi square problems Alternative life cycles Fungi/some algae •meiosis produces 1N cells that divide by mitosis to produce 1N adults (gametes by mitosis) Plants/some algae •Alternation of generations: 2N sporophyte, by meiosis, produces 1N spores; spore divides by mitosis to generate a 1N gametophyte; gametes then made by mitosis which then fertilize into 2N sporophyte Spermatogenesis and Oogenesis Spermatogenesis is the making of sperm and it starts in the seminiferous tubules. 4 viable sperm will be made. Oogenesis is the making of an egg and it starts in the ovary. Only 1 viable egg will be made. Between birth & puberty; prophase I of meiosis Puberty; FSH; completes meiosis I Meiosis II; stimulated by fertilization Know the 3 major differences between Spermatogenesis and Oogenesis Cytokinesis unequal Sperm cells consistently produce sperm, females born with all Oogenesis has long periods of wait Figure 46.15 The reproductive cycle of the human female Hormones Hormonal coordination of the menstrual and ovarian cycles involves five hormones. Gonadotropin releasing hormone (GnRH) secreted by the hypothalamus stimulate the release of LH and FSH. Follicle-stimulating hormone (FSH) secreted by the anterior pituitary. Luteinizing hormone (LH) secreted by the anterior pituitary. Estrogens secreted by the ovaries and stimulates ovulation. Progesterone secreted by the ovaries. The Fertilized Egg & Cleavage Blastomeres~ resultant cells of cleavage/mitosis Morula~solid ball of cells Blastocoel~fluid-filled cavity in morula Blastula~hollow ball stage of development Gastrulation Gastrula~ 2 layered, cup-shaped embryonic stage 3 Embryonic germ layers: Ectoderm~ outer layer; epidermis; nervous system, etc. Endoderm~ inner layer; digestive tract and associated organs; respiratory, etc. Mesoderm~skeletal; muscular; excretory, etc. Invagination~ gastrula buckling process to create the... Archenteron~ primitive gut Blastopore~ open end of archenteron Circulation system evolution, II Fish: 2-chambered heart; single circuit of blood flow Amphibians: 3-chambered heart; 2 circuits of blood flow- pulmocutaneous (lungs and skin); systemic (some mixing) Mammals: 4-chambered heart; double circulation; complete separation between oxygen-rich and oxygen poor blood Figure 42.3 Generalized circulatory schemes of vertebrates Double circulation From right ventricle to lungs via pulmonary arteries through semilunar valve (pulmonary circulation) Capillary beds in lungs to left atrium via pulmonary veins Left atrium to left ventricle (through atrioventricular valve) to aorta Aorta to coronary arteries; then systemic circulation Back to heart via two venae cavae (superior and inferior); right atrium Blood vessel structural differences Capillaries endothelium; basement membrane Arteries thick connective tissue; thick smooth muscle; endothelium; basement membrane Veins thin connective tissue; thin smooth muscle; endothelium; basement membrane Figure 42.8 The structure of blood vessels Blood Plasma: liquid matrix of blood in which cells are suspended (90% water) Erythrocytes (RBCs): transport O2 via hemoglobin Leukocytes (WBCs): defense and immunity Platelets: clotting Stem cells: pluripotent cells in the red marrow of bones Blood clotting: fibrinogen (inactive)/ fibrin (active); hemophilia; thrombus (clot) Gas exchange CO2 <---> O2 Aquatic: gills ventilation countercurrent exchange Terrestrial: tracheal systems lungs Mammalian respiratory systems Larynx (upper part of respiratory tract) Vocal cords (sound production) Trachea (windpipe) Bronchi (tube to lungs) Bronchioles Alveoli (air sacs) Diaphragm (breathing muscle) Breathing Positive pressure breathing: pushes air into lungs (frog) Negative pressure breathing: pulls air into lungs (mammals) Inhalation: diaphragm contraction; Exhalation: diaphragm relaxation Tidal volume: amount of air inhaled and exhaled with each breath (500ml) Vital capacity: maximum tidal volume during forced breathing (4L) Regulation: CO2 concentration in blood (medulla oblongata) Respiratory pigments: gas transport Oxygen transport Hemocyanin: found in hemolymph of arthropods and mollusks (Cu) Hemoglobin: vertebrates (Fe) Carbon dioxide transportBlood plasma (7%) Hemoglobin (23%) Bicarbonate ions (70%) Deep-diving air-breathers Myoglobin: oxygen storing protein Lines of Defense Nonspecific Defense Mechanisms…… Specific Immunity Lymphocyctes •pluripotent stem cells... • B Cells (bone marrow) • T Cells (thymus) Antigen: a foreign molecule that elicits a response by lymphocytes (virus, bacteria, fungus, protozoa, parasitic worms) Antibodies: antigen-binding immunoglobulin, produced by B cells Antigen receptors: plasma membrane receptors on b and T cells Induction of Immune Responses Primary immune response: lymphocyte proliferation and differentiation the 1st time the body is exposed to an antigen Plasma cells: antibody-producing effector B-cells Secondary immune response: immune response if the individual is exposed to the same antigen at some later time~ Immunological memory Self/Nonself Recognition Self-tolerance: capacity to distinguish self from non-self Autoimmune diseases: failure of self-tolerance; multiple sclerosis, lupus, rheumatoid arthritis, insulin-dependent diabetes mellitus Major Histocompatability Complex (MHC): body cell surface antigens coded by a family of genes Class I MHC molecules: found on all nucleated cells Class II MHC molecules: found on macrophages, B cells, and activated T cells Antigen presentation: process by which an MHC molecule “presents’ an intracellular protein to an antigen receptor on a nearby T cell Cytotoxic T cells (TC): bind to protein fragments displayed on class I MHC molecules Helper T cells (TH): bind to proteins displayed by class II MHC molecules Figure 43.10 An overview of the immune responses (Layer 4) Ecology Components: abiotic~ nonliving chemical & physical factors biotic~living factors Population~ group of individuals of the same species in a particular geographical area Community~ assemblage of populations of different species Ecosystem~ all abiotic factors and the community of species in an area Population Growth Models Exponential model (blue) • idealized population in an unlimited environment (J-curve); r-selected species (r=per capita growth rate) Logistic model (red) •carrying capacity (K): maximum population size that a particular environment can support (S-curve); K-selected species Population life history “strategies” r-selected K-selected (equilibrial) (opportunistic) Long maturation & lifespan Short maturation & lifespan Few (large) offspring; Many (small) offspring; usually several (late) usually 1 (early) reproduction; reproductions; extensive no parental care parental care High death rate Low death rate Community structure Community~ an assemblage of populations living close enough together for potential interaction Richness (number of species) & abundance……. Species diversity Interspecific (interactions between populations of different species within a community): Predation including parasitism; may involve a keystone species/predator Keystone species may not be abundant in the environment, but they will exert a strong control on community structures; not by number, but by niches. They are usually a predator. Competition Commensalism Mutualism Interactions Interspecific (interactions between populations of different species within a community): Predation including parasitism; may involve a keystone species/predator Keystone species may not be abundant in the environment, but they will exert a strong control on community structures; not by number, but by niches. They are usually a predator. Competition Commensalism Mutualism Relationships Trophic structure / levels~ feeding relationships in an ecosystem Primary producers~ the trophic level that supports all others; autotrophs Primary consumers~ herbivores Secondary and tertiary consumers~ carnivores Detrivores/detritus~ special consumers that derive nutrition from nonliving organic matter Food chain~ trophic level food pathway Energy Flow, I Primary productivity (amount of light energy converted to chemical energy by autotrophs) Gross (GPP): total energy Net (NPP): represents the storage of energy available to consumers Rs: respiration NPP = GPP - Rs Biomass: primary productivity reflected as dry weight of organic material Secondary productivity: the rate at which an ecosystem's consumers convert chemical energy of the food they eat into their own new biomass Energy Flow, II Ecological efficiency: % of E transferred from one trophic level to the next (5-20%) Pyramid of productivity: multiplicative loss of energy in trophic levels Biomass pyramid: trophic representation of biomass in ecosystems Pyramid of numbers: trophic representation of the number of organisms in an ecosystem
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